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Soojin Yi - Publications

Affiliations: 
Georgia Institute of Technology, Atlanta, GA 
Area:
Evolutionary Genomics
Website:
http://www.yilab.gatech.edu/

82 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Wu X, Bhatia N, Grozinger CM, Yi SV. Comparative studies of genomic and epigenetic factors influencing transcriptional variation in two insect species. G3 (Bethesda, Md.). PMID 36137211 DOI: 10.1093/g3journal/jkac230  0.423
2022 Zhao Q, Shao F, Li Y, Yi SV, Peng Z. Novel genome sequence of Chinese cavefish (Triplophysa rosa) reveals pervasive relaxation of natural selection in cavefish genomes. Molecular Ecology. PMID 36125323 DOI: 10.1111/mec.16700  0.351
2022 Jeong H, Baran NM, Sun D, Chatterjee P, Layman TS, Balakrishnan CN, Maney DL, Yi SV. Dynamic molecular evolution of a supergene with suppressed recombination in white-throated sparrows. Elife. 11. PMID 36040313 DOI: 10.7554/eLife.79387  0.76
2022 Arsala D, Wu X, Yi SV, Lynch JA. Dnmt1a is essential for gene body methylation and the regulation of the zygotic genome in a wasp. Plos Genetics. 18: e1010181. PMID 35522715 DOI: 10.1371/journal.pgen.1010181  0.429
2021 Yi SV, Goodisman MAD. The impact of epigenetic information on genome evolution. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 376: 20200114. PMID 33866804 DOI: 10.1098/rstb.2020.0114  0.39
2021 Jeong H, Mendizabal I, Berto S, Chatterjee P, Layman T, Usui N, Toriumi K, Douglas C, Singh D, Huh I, Preuss TM, Konopka G, Yi SV. Evolution of DNA methylation in the human brain. Nature Communications. 12: 2021. PMID 33795684 DOI: 10.1038/s41467-021-21917-7  0.673
2021 Singh D, Yi SV. Enhancer pleiotropy, gene expression, and the architecture of human enhancer-gene interactions. Molecular Biology and Evolution. PMID 33749795 DOI: 10.1093/molbev/msab085  0.334
2021 Singh D, Sun D, King AG, Alquezar-Planas DE, Johnson RN, Alvarez-Ponce D, Yi SV. Koala methylomes reveal divergent and conserved DNA methylation signatures of X chromosome regulation. Proceedings. Biological Sciences. 288: 20202244. PMID 33622136 DOI: 10.1098/rspb.2020.2244  0.405
2021 Sun D, Layman TS, Jeong H, Chatterjee P, Grogan K, Merritt JR, Maney DL, Yi SV. Genome-wide variation in DNA methylation linked to developmental stage and chromosomal suppression of recombination in white-throated sparrows. Molecular Ecology. PMID 33421223 DOI: 10.1111/mec.15793  0.741
2020 Maney DL, Merritt JR, Prichard MR, Horton BM, Yi SV. Inside the supergene of the bird with four sexes. Hormones and Behavior. 104850. PMID 32937166 DOI: 10.1016/J.Yhbeh.2020.104850  0.649
2020 Kyger R, Luzuriaga-Neira A, Layman T, Sandberg TOM, Singh D, Huchon D, Peri S, Atkinson SD, Bartholomew JL, Yi SV, Alvarez-Ponce D. Myxosporea (Myxozoa, Cnidaria) lack DNA cytosine methylation. Molecular Biology and Evolution. PMID 32898240 DOI: 10.1093/Molbev/Msaa214  0.438
2020 Merritt JR, Grogan KE, Zinzow-Kramer WM, Sun D, Ortlund EA, Yi SV, Maney DL. A supergene-linked estrogen receptor drives alternative phenotypes in a polymorphic songbird. Proceedings of the National Academy of Sciences of the United States of America. PMID 32817554 DOI: 10.1073/Pnas.2011347117  0.646
2020 Wu X, Galbraith DA, Chatterjee P, Jeong H, Grozinger CM, Yi SV. Lineage and parent-of-origin effects in DNA methylation of honey bees (Apis mellifera) revealed by reciprocal crosses and whole-genome bisulfite sequencing. Genome Biology and Evolution. PMID 32597952 DOI: 10.1093/Gbe/Evaa133  0.36
2020 Wu X, Lindsey ARI, Chatterjee P, Werren JH, Stouthamer R, Yi SV. Distinct epigenomic and transcriptomic modifications associated with Wolbachia-mediated asexuality. Plos Pathogens. 16: e1008397. PMID 32187233 DOI: 10.1371/Journal.Ppat.1008397  0.403
2019 Berto S, Mendizabal I, Usui N, Toriumi K, Chatterjee P, Douglas C, Tamminga CA, Preuss TM, Yi SV, Konopka G. Accelerated evolution of oligodendrocytes in the human brain. Proceedings of the National Academy of Sciences of the United States of America. PMID 31712436 DOI: 10.1073/Pnas.1907982116  0.577
2019 Sun D, Maney DL, Layman TS, Chatterjee P, Yi SV. Regional epigenetic differentiation of the Z Chromosome between sexes in a female heterogametic system. Genome Research. PMID 31548356 DOI: 10.1101/gr.248641.119  0.642
2019 Mendizabal I, Berto S, Usui N, Toriumi K, Chatterjee P, Douglas C, Huh I, Jeong H, Layman T, Tamminga CA, Preuss TM, Konopka G, Yi SV. Cell type-specific epigenetic links to schizophrenia risk in the brain. Genome Biology. 20: 135. PMID 31288836 DOI: 10.1186/S13059-019-1747-7  0.547
2019 Spainhour JC, Lim HS, Yi SV, Qiu P. Correlation Patterns Between DNA Methylation and Gene Expression in The Cancer Genome Atlas. Cancer Informatics. 18: 1176935119828776. PMID 30792573 DOI: 10.1177/1176935119828776  0.429
2018 Jeong H, Wu X, Smith B, Yi SV. Genomic Landscape of Methylation Islands in Hymenopteran Insects. Genome Biology and Evolution. PMID 30239702 DOI: 10.1093/gbe/evy203  0.472
2018 Lee KS, Chatterjee P, Choi EY, Sung MK, Oh J, Won H, Park SM, Kim YJ, Yi SV, Choi JK. Selection on the regulation of sympathetic nervous activity in humans and chimpanzees. Plos Genetics. 14: e1007311. PMID 29672586 DOI: 10.1371/journal.pgen.1007311  0.321
2018 Sun D, Huh I, Zinzow-Kramer WM, Maney DL, Yi SV. Rapid regulatory evolution of a nonrecombining autosome linked to divergent behavioral phenotypes. Proceedings of the National Academy of Sciences of the United States of America. PMID 29483264 DOI: 10.1073/pnas.1717721115  0.671
2017 Yi SV. Insights into Epigenome Evolution from Animal and Plant Methylomes. Genome Biology and Evolution. PMID 29036466 DOI: 10.1093/gbe/evx203  0.433
2017 Huh I, Wu X, Park T, Yi SV. Detecting differential DNA methylation from sequencing of bisulfite converted DNA of diverse species. Briefings in Bioinformatics. PMID 28981571 DOI: 10.1093/bib/bbx077  0.404
2017 Mendizabal I, Zeng J, Keller TE, Yi SV. Body-hypomethylated human genes harbor extensive intragenic transcriptional activity and are prone to cancer-associated dysregulation. Nucleic Acids Research. PMID 28115635 DOI: 10.1093/Nar/Gkx020  0.453
2016 Mendizabal I, Shi L, Keller TE, Konopka G, Preuss TM, Hsieh TF, Hu E, Zhang Z, Su B, Yi SV. Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution. Molecular Biology and Evolution. PMID 27563052 DOI: 10.1093/Molbev/Msw176  0.678
2016 Keller TE, Lasky JR, Yi SV. The multivariate association between genome-wide DNA methylation and climate across the range of Arabidopsis thaliana. Molecular Ecology. PMID 26850505 DOI: 10.1111/Mec.13573  0.378
2015 Keller TE, Han P, Yi SV. Evolutionary Transition of Promoter and Gene Body DNA Methylation across Invertebrate-Vertebrate Boundary. Molecular Biology and Evolution. PMID 26715626 DOI: 10.1093/Molbev/Msv345  0.473
2015 Glastad KM, Goodisman MA, Yi SV, Hunt BG. Effects of DNA Methylation and Chromatin State on Rates of Molecular Evolution in Insects. G3 (Bethesda, Md.). PMID 26637432 DOI: 10.1534/G3.115.023499  0.756
2015 Mendizabal I, Yi SV. Whole-genome bisulfite sequencing maps from multiple human tissues reveal novel CpG islands associated with tissue-specific regulation. Human Molecular Genetics. PMID 26512062 DOI: 10.1093/hmg/ddv449  0.403
2015 Zinzow-Kramer WM, Horton BM, McKee CD, Michaud JM, Tharp GK, Thomas JW, Tuttle EM, Yi S, Maney DL. Genes located in a chromosomal inversion are correlated with territorial song in white-throated sparrows. Genes, Brain, and Behavior. PMID 26463687 DOI: 10.1111/Gbb.12252  0.691
2015 Sun D, Yi SV. Impacts of Chromatin States and Long-Range Genomic Segments on Aging and DNA Methylation. Plos One. 10: e0128517. PMID 26091484 DOI: 10.1371/journal.pone.0128517  0.348
2015 Xie R, Pang S, Ma Y, Deng L, He S, Yi S, Lv Q, Zheng Y. The ARF, AUX/IAA and GH3 gene families in citrus: genome-wide identification and expression analysis during fruitlet drop from abscission zone A. Molecular Genetics and Genomics : Mgg. PMID 25982744 DOI: 10.1007/s00438-015-1063-1  0.318
2015 Galbraith DA, Yang X, Niño EL, Yi S, Grozinger C. Parallel epigenomic and transcriptomic responses to viral infection in honey bees (Apis mellifera). Plos Pathogens. 11: e1004713. PMID 25811620 DOI: 10.1371/Journal.Ppat.1004713  0.448
2015 Tran NT, Gao ZX, Zhao HH, Yi SK, Chen BX, Zhao YH, Lin L, Liu XQ, Wang WM. Transcriptome analysis and microsatellite discovery in the blunt snout bream (Megalobrama amblycephala) after challenge with Aeromonas hydrophila. Fish & Shellfish Immunology. 45: 72-82. PMID 25681750 DOI: 10.1016/j.fsi.2015.01.034  0.303
2014 Zeng J, Yi SV. Specific modifications of histone tails, but not DNA methylation, mirror the temporal variation of mammalian recombination hotspots. Genome Biology and Evolution. 6: 2918-29. PMID 25326136 DOI: 10.1093/gbe/evu230  0.426
2014 Akhshabi S, Sarda S, Dovrolis C, Yi S. An explanatory evo-devo model for the developmental hourglass. F1000research. 3: 156. PMID 25210617 DOI: 10.12688/F1000Research.4583.1  0.42
2014 Huh I, Yang X, Park T, Yi SV. Bis-class: a new classification tool of methylation status using bayes classifier and local methylation information. Bmc Genomics. 15: 608. PMID 25037738 DOI: 10.1186/1471-2164-15-608  0.373
2014 Mendizabal I, Keller TE, Zeng J, Yi SV. Epigenetics and evolution. Integrative and Comparative Biology. 54: 31-42. PMID 24838745 DOI: 10.1093/Icb/Icu040  0.461
2014 Glastad KM, Hunt BG, Yi SV, Goodisman MA. Epigenetic inheritance and genome regulation: is DNA methylation linked to ploidy in haplodiploid insects? Proceedings. Biological Sciences / the Royal Society. 281: 20140411. PMID 24789901 DOI: 10.1098/Rspb.2014.0411  0.765
2014 Keller TE, Yi SV. DNA methylation and evolution of duplicate genes. Proceedings of the National Academy of Sciences of the United States of America. 111: 5932-7. PMID 24711408 DOI: 10.1073/Pnas.1321420111  0.461
2014 Zeng J, Nagrajan HK, Yi SV. Fundamental diversity of human CpG islands at multiple biological levels. Epigenetics : Official Journal of the Dna Methylation Society. 9: 483-91. PMID 24419148 DOI: 10.4161/epi.27654  0.303
2013 Kocher SD, Li C, Yang W, Tan H, Yi SV, Yang X, Hoekstra HE, Zhang G, Pierce NE, Yu DW. The draft genome of a socially polymorphic halictid bee, Lasioglossum albipes. Genome Biology. 14: R142. PMID 24359881 DOI: 10.1186/Gb-2013-14-12-R142  0.341
2013 Hall DW, Yi SV, Goodisman MA. Kin selection, genomics and caste-antagonistic pleiotropy. Biology Letters. 9: 20130309. PMID 24132087 DOI: 10.1098/Rsbl.2013.0309  0.327
2013 Xu K, Wang J, Elango N, Yi SV. The evolution of lineage-specific clusters of single nucleotide substitutions in the human genome. Molecular Phylogenetics and Evolution. 69: 276-85. PMID 23770436 DOI: 10.1016/J.Ympev.2013.06.003  0.672
2013 Huh I, Zeng J, Park T, Yi SV. DNA methylation and transcriptional noise. Epigenetics & Chromatin. 6: 9. PMID 23618007 DOI: 10.1186/1756-8935-6-9  0.381
2013 Hunt BG, Glastad KM, Yi SV, Goodisman MA. The function of intragenic DNA methylation: insights from insect epigenomes. Integrative and Comparative Biology. 53: 319-28. PMID 23509238 DOI: 10.1093/Icb/Ict003  0.736
2013 Hunt BG, Glastad KM, Yi SV, Goodisman MA. Patterning and regulatory associations of DNA methylation are mirrored by histone modifications in insects. Genome Biology and Evolution. 5: 591-8. PMID 23458712 DOI: 10.1093/Gbe/Evt030  0.743
2013 Yi SV. Morris Goodman's hominoid rate slowdown: the importance of being neutral. Molecular Phylogenetics and Evolution. 66: 569-74. PMID 22902941 DOI: 10.1016/j.ympev.2012.07.031  0.305
2012 Yi S. Birds do it, bees do it, worms and ciliates do it too: DNA methylation from unexpected corners of the tree of life. Genome Biology. 13: 174. PMID 23075474 DOI: 10.1186/gb-2012-13-10-174  0.376
2012 Zeng J, Konopka G, Hunt BG, Preuss TM, Geschwind D, Yi SV. Divergent whole-genome methylation maps of human and chimpanzee brains reveal epigenetic basis of human regulatory evolution. American Journal of Human Genetics. 91: 455-65. PMID 22922032 DOI: 10.1016/J.Ajhg.2012.07.024  0.807
2012 Jjingo D, Conley AB, Yi SV, Lunyak VV, Jordan IK. On the presence and role of human gene-body DNA methylation. Oncotarget. 3: 462-74. PMID 22577155 DOI: 10.18632/Oncotarget.497  0.435
2012 Sarda S, Zeng J, Hunt BG, Yi SV. The evolution of invertebrate gene body methylation. Molecular Biology and Evolution. 29: 1907-16. PMID 22328716 DOI: 10.1093/Molbev/Mss062  0.752
2012 Park J, Xu K, Park T, Yi SV. What are the determinants of gene expression levels and breadths in the human genome? Human Molecular Genetics. 21: 46-56. PMID 21945885 DOI: 10.1093/hmg/ddr436  0.425
2011 Hunt BG, Ometto L, Wurm Y, Shoemaker D, Yi SV, Keller L, Goodisman MA. Relaxed selection is a precursor to the evolution of phenotypic plasticity. Proceedings of the National Academy of Sciences of the United States of America. 108: 15936-41. PMID 21911372 DOI: 10.1073/Pnas.1104825108  0.703
2011 Glastad KM, Hunt BG, Yi SV, Goodisman MA. DNA methylation in insects: on the brink of the epigenomic era. Insect Molecular Biology. 20: 553-65. PMID 21699596 DOI: 10.1111/J.1365-2583.2011.01092.X  0.74
2011 Park J, Peng Z, Zeng J, Elango N, Park T, Wheeler D, Werren JH, Yi SV. Comparative analyses of DNA methylation and sequence evolution using Nasonia genomes. Molecular Biology and Evolution. 28: 3345-54. PMID 21693438 DOI: 10.1093/Molbev/Msr168  0.753
2011 Elango N, Yi SV. Functional relevance of CpG island length for regulation of gene expression. Genetics. 187: 1077-83. PMID 21288871 DOI: 10.1534/Genetics.110.126094  0.706
2011 Wurm Y, Wang J, Riba-Grognuz O, Corona M, Nygaard S, Hunt BG, Ingram KK, Falquet L, Nipitwattanaphon M, Gotzek D, Dijkstra MB, Oettler J, Comtesse F, Shih CJ, Wu WJ, ... ... Yi SV, et al. The genome of the fire ant Solenopsis invicta. Proceedings of the National Academy of Sciences of the United States of America. 108: 5679-84. PMID 21282665 DOI: 10.1073/Pnas.1009690108  0.729
2010 Zeng J, Yi SV. DNA methylation and genome evolution in honeybee: gene length, expression, functional enrichment covary with the evolutionary signature of DNA methylation. Genome Biology and Evolution. 2: 770-80. PMID 20924039 DOI: 10.1093/gbe/evq060  0.467
2010 Hunt BG, Brisson JA, Yi SV, Goodisman MA. Functional conservation of DNA methylation in the pea aphid and the honeybee. Genome Biology and Evolution. 2: 719-28. PMID 20855427 DOI: 10.1093/Gbe/Evq057  0.758
2010 Hunt BG, Wyder S, Elango N, Werren JH, Zdobnov EM, Yi SV, Goodisman MA. Sociality is linked to rates of protein evolution in a highly social insect. Molecular Biology and Evolution. 27: 497-500. PMID 20110264 DOI: 10.1093/Molbev/Msp225  0.749
2010 Werren JH, Richards S, Desjardins CA, Niehuis O, Gadau J, Colbourne JK, Werren JH, Richards S, Desjardins CA, Niehuis O, Gadau J, Colbourne JK, Beukeboom LW, Desplan C, ... ... Yi SV, et al. Functional and evolutionary insights from the genomes of three parasitoid Nasonia species. Science (New York, N.Y.). 327: 343-8. PMID 20075255 DOI: 10.1126/Science.1178028  0.715
2009 Yi SV, Goodisman MA. Computational approaches for understanding the evolution of DNA methylation in animals. Epigenetics. 4: 551-6. PMID 20009525  0.429
2009 Elango N, Hunt BG, Goodisman MA, Yi SV. DNA methylation is widespread and associated with differential gene expression in castes of the honeybee, Apis mellifera. Proceedings of the National Academy of Sciences of the United States of America. 106: 11206-11. PMID 19556545 DOI: 10.1073/Pnas.0900301106  0.812
2009 Peng Z, Elango N, Wildman DE, Yi SV. Primate phylogenomics: developing numerous nuclear non-coding, non-repetitive markers for ecological and phylogenetic applications and analysis of evolutionary rate variation. Bmc Genomics. 10: 247. PMID 19470178 DOI: 10.1186/1471-2164-10-247  0.68
2009 Elango N, Lee J, Peng Z, Loh YH, Yi SV. Evolutionary rate variation in Old World monkeys. Biology Letters. 5: 405-8. PMID 19324652 DOI: 10.1098/Rsbl.2008.0712  0.711
2008 Loh YH, Katz LS, Mims MC, Kocher TD, Yi SV, Streelman JT. Comparative analysis reveals signatures of differentiation amid genomic polymorphism in Lake Malawi cichlids. Genome Biology. 9: R113. PMID 18616806 DOI: 10.1186/Gb-2008-9-7-R113  0.304
2008 Elango N, Yi SV. DNA methylation and structural and functional bimodality of vertebrate promoters. Molecular Biology and Evolution. 25: 1602-8. PMID 18469331 DOI: 10.1093/Molbev/Msn110  0.739
2008 Elango N, Kim SH, Vigoda E, Yi SV. Mutations of different molecular origins exhibit contrasting patterns of regional substitution rate variation. Plos Computational Biology. 4: e1000015. PMID 18463707 DOI: 10.1371/Journal.Pcbi.1000015  0.706
2008 Kim SH, Yi SV. Mammalian nonsynonymous sites are not overdispersed: comparative genomic analysis of index of dispersion of mammalian proteins. Molecular Biology and Evolution. 25: 634-42. PMID 18096564 DOI: 10.1093/molbev/msm281  0.302
2006 Kim SH, Elango N, Warden C, Vigoda E, Yi SV. Heterogeneous genomic molecular clocks in primates. Plos Genetics. 2: e163. PMID 17029560 DOI: 10.1371/Journal.Pgen.0020163  0.687
2006 Elango N, Thomas JW, Yi SV. Variable molecular clocks in hominoids. Proceedings of the National Academy of Sciences of the United States of America. 103: 1370-5. PMID 16432233 DOI: 10.1073/Pnas.0510716103  0.641
2005 Yi S, Streelman JT. Genome size is negatively correlated with effective population size in ray-finned fish. Trends in Genetics : Tig. 21: 643-6. PMID 16213058 DOI: 10.1016/J.Tig.2005.09.003  0.35
2005 Yi S, Li WH. Molecular evolution of recombination hotspots and highly recombining pseudoautosomal regions in hominoids. Molecular Biology and Evolution. 22: 1223-30. PMID 15703241 DOI: 10.1093/Molbev/Msi106  0.367
2005 Bartolomé C, Maside X, Yi S, Grant AL, Charlesworth B. Patterns of selection on synonymous and nonsynonymous variants in Drosophila miranda. Genetics. 169: 1495-507. PMID 15545653 DOI: 10.1534/Genetics.104.033068  0.539
2004 Yi S, Summers TJ, Pearson NM, Li WH. Recombination has little effect on the rate of sequence divergence in pseudoautosomal boundary 1 among humans and great apes. Genome Research. 14: 37-43. PMID 14672979 DOI: 10.1101/Gr.1777204  0.359
2003 Yi S, Charlesworth B. Unusual pattern of single nucleotide polymorphism at the exuperantia2 locus of Drosophila pseudoobscura. Genetical Research. 82: 101-6. PMID 14768894 DOI: 10.1017/S0016672303006402  0.497
2003 Yi S, Bachtrog D, Charlesworth B. A survey of chromosomal and nucleotide sequence variation in Drosophila miranda. Genetics. 164: 1369-81. PMID 12930746  0.696
2002 Yi S, Ellsworth DL, Li WH. Slow molecular clocks in Old World monkeys, apes, and humans. Molecular Biology and Evolution. 19: 2191-8. PMID 12446810 DOI: 10.1093/Oxfordjournals.Molbev.A004043  0.389
2002 Li WH, Yi S, Makova K. Male-driven evolution. Current Opinion in Genetics & Development. 12: 650-6. PMID 12433577 DOI: 10.1016/S0959-437X(02)00354-4  0.347
2000 Yi S, Charlesworth B. A selective sweep associated with a recent gene transposition in Drosophila miranda. Genetics. 156: 1753-63. PMID 11102371  0.472
2000 Yi S, Charlesworth B. Contrasting patterns of molecular evolution of the genes on the new and old sex chromosomes of Drosophila miranda. Molecular Biology and Evolution. 17: 703-17. PMID 10779531 DOI: 10.1093/Oxfordjournals.Molbev.A026349  0.543
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